RNA 3D Hub //

Equivalence class NR_4.0_12763.23 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
17QI4|1|A (rep)Large subunit ribosomal RNA16S mitochondrial rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome at 2.2 A resolutionElectron microscopy2.212022-07-13
27OF0|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset1).Electron microscopy2.22021-06-09
36ZM6|1|ALarge subunit ribosomal RNA16S mitochondrial rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNAElectron microscopy2.592021-01-13
47O9M|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1 and the MALSU moduleElectron microscopy2.52021-06-30
57OF6|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 2).Electron microscopy2.62021-06-09
67OF4|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 1).Electron microscopy2.72021-06-09
76ZM5|1|ALarge subunit ribosomal RNA16S mitochondrial rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptideElectron microscopy2.892021-01-13
87OF7|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset1).Electron microscopy2.52021-06-23
96VMI|1|ALarge subunit ribosomal RNA16s rRNAHomo sapiensMitochondriaRF02541Structure of the human mitochondrial ribosome-EF-G1 complex (ClassIII)Electron microscopy2.962020-08-05
106VLZ|1|ALarge subunit ribosomal RNA16s rRNAHomo sapiensMitochondriaRF02541Structure of the human mitochondrial ribosome-EF-G1 complex (ClassI)Electron microscopy2.972020-08-05
117OF2|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with GTPBP6.Electron microscopy2.72021-06-02
127OF3|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset2).Electron microscopy2.72021-05-19
137L20|1|ALarge subunit ribosomal RNA16S rRNA mitochondrialHomo sapiensMitochondriaRF02541Cryo-EM structure of the human 39S mitoribosomal subunit in complex with RRFmt and EF-G2mt.Electron microscopy3.152021-05-12
147ODR|1|ALarge subunit ribosomal RNA16S mitochondrial rRNA, DNA (31-MER),16S mitochondrial rRNAHomo sapiensMitochondriaRF02541State A of the human mitoribosomal large subunit assembly intermediateElectron microscopy2.92021-06-23
157A5J|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Structure of the split human mitoribosomal large subunit with P-and E-site mt-tRNAsElectron microscopy3.12020-12-23
167OF5|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset2).Electron microscopy2.92021-06-09
177ODT|1|ALarge subunit ribosomal RNA16S mitochondrial rRNAHomo sapiensMitochondriaRF02541State C of the human mitoribosomal large subunit assembly intermediateElectron microscopy3.12021-06-23
187O9K|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1, the MALSU module, GTPBP5 and mtEF-TuElectron microscopy3.12021-06-30
195OOL|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNAElectron microscopy3.062017-09-13
207ODS|1|ALarge subunit ribosomal RNA16S mitochondrial rRNA, DNA (30-MER),16S mitochondrial rRNAHomo sapiensMitochondriaRF02541State B of the human mitoribosomal large subunit assembly intermediateElectron microscopy3.12021-06-23
217OIC|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 4Electron microscopy3.12021-09-15
227A5H|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Structure of the split human mitoribosomal large subunit with rescue factors mtRF-R and MTRES1Electron microscopy3.32020-12-23
237L08|1|ALarge subunit ribosomal RNA16S RRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of the human 55S mitoribosome-RRFmt complex.Electron microscopy3.492021-05-12
247PO4|1|ALarge subunit ribosomal RNA16SrRNAHomo sapiensMitochondriaRF02541Assembly intermediate of human mitochondrial ribosome large subunit (largely unfolded rRNA with MALSU1, L0R8F8 and ACP)Electron microscopy2.562022-06-15
257QH7|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensEukaryaRF02541Cryo-EM structure of the human mtLSU assembly intermediate upon MRM2 depletion - class 4Electron microscopy2.892022-05-18
267OIE|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5BElectron microscopy3.52021-09-15
276ZSC|1|XALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome in complex with E-site tRNAElectron microscopy3.52020-09-16
287A5K|1|A3Large subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Structure of the human mitoribosome in the post translocation state bound to mtEF-G1Electron microscopy3.72020-12-23
297A5I|1|A3Large subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Structure of the human mitoribosome with A- P-and E-site mt-tRNAsElectron microscopy3.72020-12-23
307OID|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5AElectron microscopy3.72021-09-15
316ZSD|1|XALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome in complex with mRNA, P-site tRNA and E-site tRNAElectron microscopy3.72020-09-16
327PD3|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Structure of the human mitoribosomal large subunit in complex with NSUN4.MTERF4.GTPBP7 and MALSU1.L0R8F8.mt-ACPElectron microscopy3.42021-11-17
337OG4|1|XALarge subunit ribosomal RNA16S mitochondrial rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome in complex with P/E-tRNAElectron microscopy3.82021-06-23
347QH6|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensEukaryaRF02541Cryo-EM structure of the human mtLSU assembly intermediate upon MRM2 depletion - class 1Electron microscopy3.082022-03-02
353J9M|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Structure of the human mitochondrial ribosome (class 1)Electron microscopy3.52015-04-15
366I9R|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Large subunit of the human mitochondrial ribosome in complex with Virginiamycin M and QuinupristinElectron microscopy3.92020-07-08
375OOM|1|ALarge subunit ribosomal RNA16S ribosomal RNAHomo sapiensMitochondriaRF02541Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNAElectron microscopy3.032017-09-13
386ZSG|1|XALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome in complex with mRNA, A-site tRNA, P-site tRNA and E-site tRNAElectron microscopy42020-10-14
396ZSA|1|XALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome bound to mRNA, A-site tRNA and P-site tRNAElectron microscopy42020-10-21
406ZS9|1|XALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Human mitochondrial ribosome in complex with ribosome recycling factorElectron microscopy42020-10-14
417OIA|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3CElectron microscopy3.22021-09-15
423J7Y|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Structure of the large ribosomal subunit from human mitochondriaElectron microscopy3.42014-10-15
437OIB|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3DElectron microscopy3.32021-09-15
447OI9|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3BElectron microscopy3.32021-09-15
456NU2|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Structural insights into unique features of the human mitochondrial ribosome recyclingElectron microscopy3.92019-04-17
467OI8|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3AElectron microscopy3.52021-09-15
477OI7|1|ALarge subunit ribosomal RNA16S rRNAHomo sapiensMitochondriaRF02541Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 2Electron microscopy3.52021-09-15

Release history

Release3.2393.2403.2413.2423.2433.2443.2453.2463.2473.2483.2493.2503.2513.2523.2533.2543.2553.2563.2573.2583.2593.2603.2613.2623.2633.2643.2653.2663.2673.2683.2693.2703.2713.2723.2733.2743.2753.2763.2773.2783.2793.2803.2813.282
Date2022-07-132022-07-202022-07-272022-08-032022-08-102022-08-172022-08-242022-08-312022-09-072022-09-142022-09-212022-09-282022-10-052022-10-122022-10-192022-10-262022-11-022022-11-092022-11-162022-11-232022-11-302022-12-072022-12-142022-12-212022-12-282023-01-042023-01-112023-01-182023-01-252023-02-012023-02-082023-02-152023-02-222023-03-012023-03-082023-03-152023-03-222023-03-292023-04-052023-04-122023-04-192023-04-262023-05-032023-05-10

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_4.0_12763.23NR_4.0_12763.223.239(46) 3J7Y|1|A, 3J9M|1|A, 5OOL|1|A, 5OOM|1|A, 6I9R|1|A, 6NU2|1|A, 6VLZ|1|A, 6VMI|1|A, 6ZM5|1|A, 6ZM6|1|A, 6ZS9|1|XA, 6ZSA|1|XA, 6ZSC|1|XA, 6ZSD|1|XA, 6ZSG|1|XA, 7A5H|1|A, 7A5I|1|A3, 7A5J|1|A, 7A5K|1|A3, 7L08|1|A, 7L20|1|A, 7O9K|1|A, 7O9M|1|A, 7ODR|1|A, 7ODS|1|A, 7ODT|1|A, 7OF0|1|A, 7OF2|1|A, 7OF3|1|A, 7OF4|1|A, 7OF5|1|A, 7OF6|1|A, 7OF7|1|A, 7OG4|1|XA, 7OI7|1|A, 7OI8|1|A, 7OI9|1|A, 7OIA|1|A, 7OIB|1|A, 7OIC|1|A, 7OID|1|A, 7OIE|1|A, 7PD3|1|A, 7PO4|1|A, 7QH6|1|A, 7QH7|1|A(1) 7QI4|1|A(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_4.0_12763.23NR_4.0_12763.243.283(47) 3J7Y|1|A, 3J9M|1|A, 5OOL|1|A, 5OOM|1|A, 6I9R|1|A, 6NU2|1|A, 6VLZ|1|A, 6VMI|1|A, 6ZM5|1|A, 6ZM6|1|A, 6ZS9|1|XA, 6ZSA|1|XA, 6ZSC|1|XA, 6ZSD|1|XA, 6ZSG|1|XA, 7A5H|1|A, 7A5I|1|A3, 7A5J|1|A, 7A5K|1|A3, 7L08|1|A, 7L20|1|A, 7O9K|1|A, 7O9M|1|A, 7ODR|1|A, 7ODS|1|A, 7ODT|1|A, 7OF0|1|A, 7OF2|1|A, 7OF3|1|A, 7OF4|1|A, 7OF5|1|A, 7OF6|1|A, 7OF7|1|A, 7OG4|1|XA, 7OI7|1|A, 7OI8|1|A, 7OI9|1|A, 7OIA|1|A, 7OIB|1|A, 7OIC|1|A, 7OID|1|A, 7OIE|1|A, 7PD3|1|A, 7PO4|1|A, 7QH6|1|A, 7QH7|1|A, 7QI4|1|A(0) (1) 7QI6|1|A

Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.

#SViewPDBTitleMethodResolutionLength
16NU2|1|AStructural insights into unique features of the human mitochondrial ribosome recyclingELECTRON MICROSCOPY3.91472
26VMI|1|AStructure of the human mitochondrial ribosome-EF-G1 complex (ClassIII)ELECTRON MICROSCOPY2.961527
36VLZ|1|AStructure of the human mitochondrial ribosome-EF-G1 complex (ClassI)ELECTRON MICROSCOPY2.971527
47L08|1|ACryo-EM structure of the human 55S mitoribosome-RRFmt complex.ELECTRON MICROSCOPY3.491527
57L20|1|ACryo-EM structure of the human 39S mitoribosomal subunit in complex with RRFmt and EF-G2mt.ELECTRON MICROSCOPY3.151527
67OIE|1|ACryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5BELECTRON MICROSCOPY3.51472
77OID|1|ACryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5AELECTRON MICROSCOPY3.71472
87OIC|1|ACryo-EM structure of late human 39S mitoribosome assembly intermediates, state 4ELECTRON MICROSCOPY3.11385
93J7Y|1|AStructure of the large ribosomal subunit from human mitochondriaELECTRON MICROSCOPY3.41473
103J9M|1|AStructure of the human mitochondrial ribosome (class 1)ELECTRON MICROSCOPY3.51472
117A5I|1|A3Structure of the human mitoribosome with A- P-and E-site mt-tRNAsELECTRON MICROSCOPY3.71485
127A5K|1|A3Structure of the human mitoribosome in the post translocation state bound to mtEF-G1ELECTRON MICROSCOPY3.71503
137A5J|1|AStructure of the split human mitoribosomal large subunit with P-and E-site mt-tRNAsELECTRON MICROSCOPY3.11492
145OOL|1|AStructure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNAELECTRON MICROSCOPY3.061441
157A5H|1|AStructure of the split human mitoribosomal large subunit with rescue factors mtRF-R and MTRES1ELECTRON MICROSCOPY3.31457
166I9R|1|ALarge subunit of the human mitochondrial ribosome in complex with Virginiamycin M and QuinupristinELECTRON MICROSCOPY3.91498
176ZS9|1|XAHuman mitochondrial ribosome in complex with ribosome recycling factorELECTRON MICROSCOPY41501
187OG4|1|XAHuman mitochondrial ribosome in complex with P/E-tRNAELECTRON MICROSCOPY3.81498
196ZSD|1|XAHuman mitochondrial ribosome in complex with mRNA, P-site tRNA and E-site tRNAELECTRON MICROSCOPY3.71501
206ZSC|1|XAHuman mitochondrial ribosome in complex with E-site tRNAELECTRON MICROSCOPY3.51501
216ZSA|1|XAHuman mitochondrial ribosome bound to mRNA, A-site tRNA and P-site tRNAELECTRON MICROSCOPY41501
226ZSG|1|XAHuman mitochondrial ribosome in complex with mRNA, A-site tRNA, P-site tRNA and E-site tRNAELECTRON MICROSCOPY41501
236ZM5|1|AHuman mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptideELECTRON MICROSCOPY2.891534
246ZM6|1|AHuman mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNAELECTRON MICROSCOPY2.591531
257QI4|1|AHuman mitochondrial ribosome at 2.2 A resolutionELECTRON MICROSCOPY2.211553
267OF6|1|AStructure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 2).ELECTRON MICROSCOPY2.61460
277OF4|1|AStructure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 1).ELECTRON MICROSCOPY2.71460
287OF2|1|AStructure of a human mitochondrial ribosome large subunit assembly intermediate in complex with GTPBP6.ELECTRON MICROSCOPY2.71407
297OF5|1|AStructure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset2).ELECTRON MICROSCOPY2.91386
307OF7|1|AStructure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset1).ELECTRON MICROSCOPY2.51373
317ODT|1|AState C of the human mitoribosomal large subunit assembly intermediateELECTRON MICROSCOPY3.11451
327QH7|1|ACryo-EM structure of the human mtLSU assembly intermediate upon MRM2 depletion - class 4ELECTRON MICROSCOPY2.891256
337OF0|1|AStructure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset1).ELECTRON MICROSCOPY2.21376
347OF3|1|AStructure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset2).ELECTRON MICROSCOPY2.71386
357ODR|1|AState A of the human mitoribosomal large subunit assembly intermediateELECTRON MICROSCOPY2.91417
367ODS|1|AState B of the human mitoribosomal large subunit assembly intermediateELECTRON MICROSCOPY3.11414
377O9M|1|AHuman mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1 and the MALSU moduleELECTRON MICROSCOPY2.51453
387PO4|1|AAssembly intermediate of human mitochondrial ribosome large subunit (largely unfolded rRNA with MALSU1, L0R8F8 and ACP)ELECTRON MICROSCOPY2.561145
397OI7|1|ACryo-EM structure of late human 39S mitoribosome assembly intermediates, state 2ELECTRON MICROSCOPY3.51054
407OI8|1|ACryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3AELECTRON MICROSCOPY3.51092
417OIA|1|ACryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3CELECTRON MICROSCOPY3.21092
427OIB|1|ACryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3DELECTRON MICROSCOPY3.31092
435OOM|1|AStructure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNAELECTRON MICROSCOPY3.031092
447OI9|1|ACryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3BELECTRON MICROSCOPY3.31092
457QH6|1|ACryo-EM structure of the human mtLSU assembly intermediate upon MRM2 depletion - class 1ELECTRON MICROSCOPY3.081133
467PD3|1|AStructure of the human mitoribosomal large subunit in complex with NSUN4.MTERF4.GTPBP7 and MALSU1.L0R8F8.mt-ACPELECTRON MICROSCOPY3.41363
477O9K|1|AHuman mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1, the MALSU module, GTPBP5 and mtEF-TuELECTRON MICROSCOPY3.11435

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.


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